The cslreferences problem seems to be caused by some recent changes to Pandoc/rmarkdown. We downgraded pandoc on tokay2 to 2.7.3 which has remedied the error.
Cheers, Lori Shepherd Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Shepherd, Lori <lori.sheph...@roswellpark.org> Sent: Tuesday, May 19, 2020 2:19 PM To: Mike Smith <grimbo...@gmail.com>; bioc-devel <bioc-devel@r-project.org> Subject: Re: [Bioc-devel] Vignette Building Latex Errors on Windows Release Branch Pandoc 2.9.2 appears to be installed on tokay2 Lori Shepherd Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Mike Smith <grimbo...@gmail.com> Sent: Monday, May 18, 2020 11:49 AM To: bioc-devel <bioc-devel@r-project.org> Subject: Re: [Bioc-devel] Vignette Building Latex Errors on Windows Release Branch Reading around, it looks more likely this is an issue with pandoc than LaTeX directly. I guess it'd help to know what version of pandoc is running on the build machine, I'm unable to recreate either using the pandoc supplied with RStudio. Mike On Fri, 15 May 2020 at 21:09, Sergio Picart Armada <sergi.pic...@upc.edu> wrote: > Dear bioc devel, > > We are having the same problem with our package FELLA. > Any help is appreciated! > > Best, > Sergi > > Missatge de petr smirnov <psmirnov2...@gmail.com> del dia dv., 15 de maig > 2020 a les 19:42: > > > I am having trouble reproducing some vignette build errors for our > > PharmacoGx package on Windows (tokay2). > > > > The error is a Latex error: > > LaTeX Error: Environment cslreferences undefined. > > > > It seems likely to be due to a missing dependency for the style file > > we are using, however, I do not understand why it works on all other > > build machines. tokay1 does not have the same error, and is building > > the same vignette. Likewise, none of the other OS machines are missing > > this dependency. > > > > I also tried to reproduce in a newly reinstalled Windows environment. > > After installing R 4.0, Rtools, all the package dependencies, and: > > knitr, knitcitations, rmarkdown, pander, and tinytex, the package > > builds on the machine. As far as I can tell, all these packages are > > also installed on tokay2. > > > > Does tokay2 use a different Latex distribution from what is installed > > by tinytex ? > > > > -- > > Petr Smirnov > > > > psmirnov2...@gmail.com > > > > _______________________________________________ > > Bioc-devel@r-project.org mailing list > > https://secure-web.cisco.com/17Rs-rRez65-ZHN_w5_QwL2wfnrf3wMZOzqfA9zX5OlkaPU0QqfKdI_B_MysjDdF00kKgfUVbHHnXQ328VKiz11JRQwkhqVkKa5DLUs--4IklPLrfkGouPhpVQNwwZPu26zHSvzl8qTPiQ-WXqWXcqGOP0iwrN7BAuCalMN3ZIERZW0oSwSmCLEkpTYNGgWDmuGHNLCSVlGWoWol7JiSk-yBKmBAQiCgyyt6tTwByOZ-NQQOprjDkCkhStwmO69Z8UQMJUeZQG_ohCN7EC6kuCYVr5qsJ2fJWETk4zB5eZIIhXGx_7Etvw-6HTa3geJ2CboJOJiRMCOesr6jmL8hg1w/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel > > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://secure-web.cisco.com/17Rs-rRez65-ZHN_w5_QwL2wfnrf3wMZOzqfA9zX5OlkaPU0QqfKdI_B_MysjDdF00kKgfUVbHHnXQ328VKiz11JRQwkhqVkKa5DLUs--4IklPLrfkGouPhpVQNwwZPu26zHSvzl8qTPiQ-WXqWXcqGOP0iwrN7BAuCalMN3ZIERZW0oSwSmCLEkpTYNGgWDmuGHNLCSVlGWoWol7JiSk-yBKmBAQiCgyyt6tTwByOZ-NQQOprjDkCkhStwmO69Z8UQMJUeZQG_ohCN7EC6kuCYVr5qsJ2fJWETk4zB5eZIIhXGx_7Etvw-6HTa3geJ2CboJOJiRMCOesr6jmL8hg1w/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://secure-web.cisco.com/17Rs-rRez65-ZHN_w5_QwL2wfnrf3wMZOzqfA9zX5OlkaPU0QqfKdI_B_MysjDdF00kKgfUVbHHnXQ328VKiz11JRQwkhqVkKa5DLUs--4IklPLrfkGouPhpVQNwwZPu26zHSvzl8qTPiQ-WXqWXcqGOP0iwrN7BAuCalMN3ZIERZW0oSwSmCLEkpTYNGgWDmuGHNLCSVlGWoWol7JiSk-yBKmBAQiCgyyt6tTwByOZ-NQQOprjDkCkhStwmO69Z8UQMJUeZQG_ohCN7EC6kuCYVr5qsJ2fJWETk4zB5eZIIhXGx_7Etvw-6HTa3geJ2CboJOJiRMCOesr6jmL8hg1w/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel This email message may contain legally privileged and/or confidential information. 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